PDF(Pubmed)
Abstract：
Safflower (Carthamus tinctorius) is a diploid crop plant belonging to the family Asteraceae and is well known as one of important oilseed crops due to edible oil containing unsaturated fatty acids. In recent years it is gaining increased attention for food, pharmaceutical and industrial uses, and hence the updating its breeding methods is necessary. Genic simple sequence repeats (SSRs) in addition of being desire molecular markers, are supposed to influence gene function and the respective phenotype. This study aimed to identify SSRs in cDNA sequences and further analysis of the functional features of the SSR-containing genes to elucidate their role in biological and cellular processes. We identified 1,841 SSR regions in 1,667 cDNA sequences. Among all types of repeats, trinucleotide repeats were the most abundant (35.7%), followed by hexanucleotide (29.6%) and dinucleotide repeats (22.0%). Thirty five SSR primer pairs were validated by PCR reaction, detected a high rate of polymorphism (>57%) among safflower accessions, physically mapped on safflower genome and could clearly discriminate the cultivated accessions from wild relatives. The cDNA-derived SSR markers are suitable for evaluation of genetic diversity, linkage and association mapping studies and genome-based breeding programmes. Occurrence of SSR repeats in biologically-important classes of proteins such as kinases, transferases and transcription factors was inferred from functional analyses, which along with variability of their repeat copies, can endow the cell and whole organism the flexibility of facing with continuously changing environment, and indicate a structure-based evolution mechanism of the genome which acts as an up-to-dating tool for the cell and whole origanism, which is realized in GO terms such as involvement of most SSR-containing genes in biological, cellular and metabolic processes, especially in response to stimulus, response to stress, interaction to other organisms and defense responses.
摘要：
红花（Carthamustinctorius）是一种二倍体作物，属于菊科，由于食用油中含有不饱和脂肪酸，因此被认为是重要的油料作物之一。近年来，它越来越受到人们对食品的关注，制药和工业用途，因此，更新其育种方法是必要的。基因组简单序列重复（SSRs）除了是理想的分子标记，被认为会影响基因功能和各自的表型。这项研究旨在鉴定cDNA序列中的SSR，并进一步分析含SSR基因的功能特征，以阐明它们在生物和细胞过程中的作用。我们在1,667个cDNA序列中鉴定了1,841个SSR区。在所有类型的重复中，三核苷酸重复是最丰富的（35.7％），其次是六核苷酸（29.6％）和二核苷酸重复（22.0％）。通过PCR反应验证了35个SSR引物对，在红花种质中检测到较高的多态性（>57％），在红花基因组上进行物理定位，可以清楚地将栽培种与野生近缘种区分开来。cDNA来源的SSR标记适用于评价遗传多样性,连锁和关联作图研究以及基于基因组的育种计划。SSR重复出现在生物学重要的蛋白质类，如激酶，从功能分析推断转移酶和转录因子，随着重复副本的可变性，可以赋予细胞和整个生物体面对不断变化的环境的灵活性，并指出基因组的基于结构的进化机制，作为细胞和整个起源的最新工具，这是用GO术语实现的，例如大多数含SSR的基因参与生物学，细胞和代谢过程，尤其是对刺激的反应，对压力的反应，与其他生物的相互作用和防御反应。
